introns

Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)

id
INTEGER (primary key), globally unique identifier for each intron
dinucleotide_pair
TEXT, terminal dinucleotide sequences of the intron
is_minor
INTEGER, indicates if the intron is a minor intron (1) or not (0)
score
REAL, score representing the probability (0-100%) of the intron being minor
length
INTEGER, length of the intron in base pairs
transcript_id
INTEGER (foreign key referencing transcripts(id)), parent transcript
ordinal_index
INTEGER, ordinal position of the intron within the transcript (e.g., 3 for the third intron)
start
INTEGER, start position of the intron in the genome
end
INTEGER, end position of the intron in the genome
taxonomy_id
INTEGER (foreign key referencing genomes(taxonomy_id)), NCBI taxonomy identifier for species
scored_motifs
TEXT, motifs scored for the intron
phase
INTEGER, phase of the intron in coding sequence (0, 1, or 2 or null for introns outside of coding sequence)
in_cds
INTEGER, indicates if the intron is within the coding sequence (1) or not (0; e.g., UTR introns)
relative_position
REAL, relative position of the intron within the transcript (as a percentage of coding length)

7 rows where transcript_id = 21550602

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id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
116461826 GT-AG 0 4.387325922292385e-05 331 rna-XM_021626763.1 21550602 1 256465 256795 Meriones unguiculatus 10047 CAG|GTGACTTGCG...ATTTCCTTGGCA/TTGGCACCAATT...CTCAG|GAC 0 1 5.34
116461827 GT-AG 0 1.000000099473604e-05 1593 rna-XM_021626763.1 21550602 2 254794 256386 Meriones unguiculatus 10047 GAG|GTGAGCAATT...GATCTCTCAGTC/TGATCTCTCAGT...AACAG|CCT 0 1 11.65
116461828 GT-AG 0 1.000000099473604e-05 82 rna-XM_021626763.1 21550602 3 254583 254664 Meriones unguiculatus 10047 CAG|GTAAAGAGGG...TGGGCCTGAGCA/CTGGGCCTGAGC...AGTAG|GCT 0 1 22.087
116461829 GT-AG 0 1.000000099473604e-05 822 rna-XM_021626763.1 21550602 4 253640 254461 Meriones unguiculatus 10047 GCA|GTAAGTGGGT...AGGTCTTTTTCC/TTTGCACTCACT...TATAG|CTA 1 1 31.877
116461830 GT-AG 0 2.405254480129141e-05 324 rna-XM_021626763.1 21550602 5 253187 253510 Meriones unguiculatus 10047 TGT|GTAAGTGTGA...GGTCTCTTCACC/ACTTGCTTCATC...CTCAG|GCA 1 1 42.314
116461831 GT-AG 0 1.000000099473604e-05 101 rna-XM_021626763.1 21550602 6 252926 253026 Meriones unguiculatus 10047 CCG|GTAAGTGACA...ATTTTCTAATTC/GATTTTCTAATT...TGCAG|GAG 2 1 55.259
116461832 GT-AG 0 1.000000099473604e-05 976 rna-XM_021626763.1 21550602 7 251848 252823 Meriones unguiculatus 10047 CAG|GTGTGTGAGC...TCTGCCATCTTT/ATTCTGGTGAGC...TGCAG|ATC 2 1 63.511

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CREATE TABLE "introns" (
"id" INTEGER,
  "dinucleotide_pair" TEXT,
  "is_minor" INTEGER,
  "score" REAL,
  "length" INTEGER,
  "transcript_id" INTEGER,
  "ordinal_index" INTEGER,
  "start" INTEGER,
  "end" INTEGER,
  "taxonomy_id" INTEGER,
  "scored_motifs" TEXT,
  "phase" INTEGER,
  "in_cds" INTEGER,
  "relative_position" REAL
  ,PRIMARY KEY ([id]),
   FOREIGN KEY([transcript_id]) REFERENCES [transcripts]([id]),
   FOREIGN KEY([taxonomy_id]) REFERENCES [genomes]([taxonomy_id])
);
CREATE INDEX [idx_introns_transcript_id]
    ON [introns] ([transcript_id]);
CREATE INDEX [idx_introns_taxonomy_id]
    ON [introns] ([taxonomy_id]);
CREATE INDEX [idx_introns_phase]
    ON [introns] ([phase]);
CREATE INDEX [idx_introns_is_minor]
    ON [introns] ([is_minor]);
CREATE INDEX [idx_introns_dinucleotide_pair]
    ON [introns] ([dinucleotide_pair]);
CREATE INDEX [idx_introns_score]
    ON [introns] ([score]);
CREATE INDEX [idx_introns_in_cds]
    ON [introns] ([in_cds]);